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113 Commits

Author SHA1 Message Date
Leeinsn
7fc8ca0312
CodeCamp #141 [Feature] Add BioMedical3DRandomFlip. (#2404) 
## Motivation

Support for biomedical 3d images augmentation.

## Modification

Add BioMedical3DRandomFlip in mmseg/datasets/transforms/transforms.py.

Co-authored-by: MeowZheng <meowzheng@outlook.com>
 2023-01-20 15:34:11 +08:00
Vladimir Loginov
6d8ba3b5a0
Update basesegdataset.py (#2492) 
## Motivation

Makes docstring to be consistent with actual argument name.

## Modification

Minor fix

## BC-breaking (Optional)

No
 2023-01-17 20:18:46 +08:00
Wencheng Wu
8dae9465a6
[Feature] Add gt_edge_map field. (#2466) 
## Motivation

The motivation of this PR is to add `gt_edge_map` field to support
boundary loss.

## Modification

- GenerateEdge
Modify `gt_edge` field to `gt_edge_map`.

- PackSegInputs
Add `gt_edge_map` to data_sample.

- stack_batch
Pad `gt_edge_map` to max_shape.

## BC-breaking (Optional)

No

## Use cases (Optional)

Reference `GenerateEdge`.
 2023-01-11 11:51:29 +08:00
谢昕辰
f90f7a56d4
[Fix] Fix incorrect img_shape value assignment in RandomCrop (#2469) 
## Motivation

Fix incorrect `img_shape` value assignment.

## Modification

- mmseg/datasets/transforms/transforms.py
 2023-01-10 18:03:43 +08:00
王永韬
2d67e51db3
CodeCamp #140 [New] [Feature] Add synapse dataset and data augmentation in dev-1.x. (#2432) 
## Motivation

Add Synapse dataset in MMSegmentation.
Old PR: https://github.com/open-mmlab/mmsegmentation/pull/2372.
 2023-01-06 16:14:54 +08:00
legendchilli
6af2b8eab9
[Feature] Add BioMedical3DPad (#2383) 
## Motivation
Add the 3d pad transform for biomedical images, which follows the design
of the nnUNet.
 2023-01-03 13:37:48 +08:00
Fivethousand
3ca690bad3
[Feature] Add BioMedicalRandomGamma (#2406) 
Add the random gamma correction transform for biomedical images, which
follows the design of the nnUNet.
 2023-01-02 21:29:03 +08:00
Haoyu Wang
26f3df7a45
[Feature] nnUNet-style Gaussian Noise and Blur (#2373) 
## Motivation

implement nnUNet-style Gaussian Noise and Blur
 2023-01-02 20:43:15 +08:00
Jin Ye
79e8578bfc [Feature] Add Biomedical 3D array random crop transform (#2378) 
* [Feature] Add Biomedical 3D array random crop transform

* fix lint

* fix gen crop bbox

* fix gen crop bbox

* docstring

* typo

Co-authored-by: MeowZheng <meowzheng@outlook.com>
 2022-12-30 22:52:07 +08:00
Miao Zheng
f3db8d779d
[Fix]Add input argument for datasets (#2379) 2022-12-05 22:27:04 +08:00
xiexinch
3b731edbd3 update copyright 2022-12-01 13:58:17 +08:00
xiexinch
5a62b0335f fix h,w order 2022-12-01 11:25:00 +08:00
xiexinch
721afaec31 add docstring 2022-11-24 16:22:07 +08:00
xiexinch
1910dffd6c minor change 2022-11-24 15:02:50 +08:00
xiexinch
68e3b25560 use mmcv.RandomChoiceResize as entry 2022-11-24 14:55:25 +08:00
xiexinch
721f4d01f3 add ut 2022-11-23 15:15:38 +08:00
xiexinch
056edc8e1a init 2022-11-22 19:51:38 +08:00
MengzhangLI
cfab5b39c0 [Fix] Fix ignore class id from -1 to 255 in BaseSegDataset in 1.x 2022-11-22 00:52:36 +08:00
MengzhangLI
2d4b113b5d [Fix] Fix typo of BaseSegDataset docstring 2022-11-18 17:20:03 +08:00
Miao Zheng
b21df463d4
[Feature] LIP dataset (#2187) 
* [WIP] LIP dataset

* wip

* keep473

* lip dataset prepare

* add ut and test data
 2022-10-31 20:47:52 +08:00
Miao Zheng
3d8fd35e26
[Feature]Add Decathlon dataset (#2227) 
* [Feature]Add Decathlon dataset

* fix test data

* add file

* remove order

* revise default value for prefix

* modify example

* revise based on  comments

* add comments for ut
 2022-10-26 20:10:42 +08:00
Miao Zheng
ac9ee8c355
[Feature]Generate Edge for dataset (#2210) 
* [WIP]Generate Edge for dataset

* add ut

* add repr

* add inti
 2022-10-20 16:45:31 +08:00
Miao Zheng
20c7dc689c
[Feature] Add BioMedical data loading (#2176) 
* [WIP] Add BioMedical data loading

* add depends nibabel

* fix bug

* fix ut

* fix

* add test data

* xyz2zyx zyx2xyz

* format

* remove ignore empty

* remove ignore empty

* remove with seg in LoadBiomedicalAnnotation

* float32

* docstring

* toxyz

* docstring
 2022-10-18 16:30:08 +08:00
MengzhangLI
f3cd44bebf
[Fix] Fix ResizeToMultiple transform in MMSeg 1.x (#2185) 2022-10-14 15:37:35 +08:00
Miao Zheng
8de0050f25
[Refactor] data flow (#1956) 
* [WIP] Refactor data flow

* model return

* [WIP] Refactor data flow

* support data_samples is optional

* fix benchmark

* fix base

* minors

* rebase

* fix api

* ut

* fix api inference

* comments

* docstring

* docstring

* docstring

* fix bug of slide inference

* add assert c > 1
 2022-08-26 15:54:23 +08:00
Miao Zheng
50546da85c
[Fix]Remove modules from mmcv.runner and mmcv.utils (#1966) 
* [WIP] mmcv-clean

* [WIP]Remove modules from mmcv.runner and mmcv.utils

* wip

* fix import mmengine

* remove ut

* loadcheckpoint in mae
 2022-08-25 15:15:21 +08:00
谢昕辰
3d98c25052 fix base dataset (#1926) 2022-08-19 20:50:03 +08:00
Miao Zheng
e0499d5a77 [Fix] Fix repo based on refactoring standard (#1869) 
* [Fix] Fix repo based on refactory standard

* fix ut
 2022-08-19 20:50:02 +08:00
谢昕辰
167f94a70b rename data to structures (#1854) 2022-08-19 20:50:02 +08:00
MengzhangLI
ecab73a892 [Feature] Add P1 DataTransform (#1843) 
* [Feature] Add P1 DataTransform

* fix unit test error

* fix @cache_randomness location
 2022-08-19 20:50:01 +08:00
MengzhangLI
e4b9d72a11
[Fix] 2.0 Fix mDice metric for medical datasets (#1864) 2022-08-04 18:32:52 +08:00
MengzhangLI
3cf2bbda2a
[Fix] Change CustomDataset to BaseSegDataset (#1791) 2022-07-26 12:01:40 +08:00
谢昕辰
ba4d1d62aa
[Feature] Add LoadImageFromNdArray pipeline (#1810) 
* add load image from ndarray pipeline

* fix import
 2022-07-22 19:40:00 +08:00
Miao Zheng
4de57b49c5
[Fix] Fix register_all_modules and imports (#1793) 
* [Fix] Fix register_all_modules and imports

* fix transforms import
 2022-07-21 22:44:42 +08:00
zhengmiao
4b76f277a6 [Refactory] MMSegmentation Content 2022-07-15 15:47:29 +00:00
xiexinchen.vendor
d74dc89214 [Refactor] Fix load annotations by file 2022-07-11 11:31:38 +00:00
xiexinch
761e1a9983 minor change 2022-07-05 20:43:33 +08:00
zhengmiao
89d6f89dfc Merge branch 'linfangjian/refactor_citysmetric' into 'refactor_dev' 
[Refactor] Refactor cityscapes metrics

See merge request openmmlab-enterprise/openmmlab-ce/mmsegmentation!46
 2022-06-28 03:21:33 +00:00
linfangjian.vendor
6053345b3d [Refactor] Refactor cityscapes metrics 2022-06-28 03:21:33 +00:00
limengzhang.vendor
f2bac79f03 [Refactor] Refactor DatasetWrapper 2022-06-27 14:36:18 +00:00
zhengmiao
b23982d1b3 [Refactory] Refactory BaseSegmentor based BaseModel 2022-06-19 06:32:09 +00:00
MengzhangLI
7a78d6e483 [Fix] Fix METAINFO typo in ChaseDB1Dataset 2022-06-09 20:49:32 +08:00
zhengmiao
f59ef99b00 [Fix]Add label_map and reduce_zero_label in metainfo of dataset and deprecate reduce_zero_label in load annotation 2022-06-09 12:23:36 +00:00
MengzhangLI
c061d6d30e [Fix] Fix omitting to_tensor in PackSegInputs 2022-06-09 11:01:56 +08:00
limengzhang.vendor
5b9c29f992 [Refactor] Refactor Dataset and its Transform Config files 2022-05-31 14:28:42 +00:00
MeowZheng
fcb948295c [Enhancement] Revise RandomCrop 2022-05-27 21:52:49 +08:00
zhengmiao
1af338e496 [Refactory] Dataset refactory 2022-05-26 09:13:40 +00:00
limengzhang.vendor
baaf9a4742 [Refactor] Add PackSegInputs and some Transforms 2022-05-26 03:06:02 +00:00
linfangjian.vendor
f6d3291064 [Refactor] Refactor RandomCrop and PhotoMetricDistortion 2022-05-25 01:58:37 +00:00
linfangjian.vendor
7a32d610e4 [Refactor] Refactor all registries 2022-05-10 12:15:20 +00:00